Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,588,010 |
T→G |
D64A (GAC→GCC) |
ydeP ← |
predicted oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,588,010 | 0 | T | G | 90.6%
| 100.8
/ ‑0.2
| 32 | D64A (GAC→GCC) | ydeP | predicted oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (1/2); new base G (14/15); total (15/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.51e-01 |
AGAAAGAGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTATT > W3110S.gb/1587942‑1588077
|
ataaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:458133/69‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:1625628/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:287801/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:2824747/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:3064058/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:2492505/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:3807634/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:1974826/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:1303302/71‑1 (MQ=255)
agaaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:101382/71‑1 (MQ=255)
agGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:1581023/65‑1 (MQ=255)
tACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACtgt > 1:1488452/1‑71 (MQ=255)
tATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAGGa > 1:1379143/1‑71 (MQ=255)
tATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAgg > 1:1466309/1‑70 (MQ=255)
cGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCTAATGACGCACTGTGCTTAGGa < 1:3356527/67‑1 (MQ=255)
cGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGa < 1:1508050/67‑1 (MQ=255)
cGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTg < 1:3958401/71‑1 (MQ=255)
cGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTg < 1:569821/71‑1 (MQ=255)
aCTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCa > 1:2666288/1‑71 (MQ=255)
cGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAAccc > 1:688209/1‑71 (MQ=255)
cGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAAccc > 1:3352190/1‑71 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCg > 1:251992/1‑71 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCg > 1:2213605/1‑71 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCg > 1:2147841/1‑71 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCg > 1:3935939/1‑71 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCg > 1:3964337/1‑71 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCg > 1:1575162/1‑71 (MQ=255)
ttCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTg > 1:1897489/1‑71 (MQ=255)
ttCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTg > 1:1380309/1‑71 (MQ=255)
ttCACAAATGGCCAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTg > 1:2106514/1‑71 (MQ=255)
aTGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTAtt < 1:3148211/71‑1 (MQ=255)
aTGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTAtt < 1:1262589/71‑1 (MQ=255)
|
AGAAAGAGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTATT > W3110S.gb/1587942‑1588077
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
